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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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All sourcesNASA NTRSDOE OSTI
DOE OSTI2012

One size fits all? An assessment tool for solid waste management at local and national levels

Highlights: Black-Right-Pointing-Pointer Waste management schemes are generally implemented at national or regional level. Black-Right-Pointing-Pointer Local conditions characteristics and constraints are often neglected. Black-Right-Pointing-Pointer We developed an economic model able to compare multi-level waste management options. Black-Right-Pointing-Pointer A detailed test case with real economic data and a best-fit scenario is described. Black-Right-Pointing-Pointer Most efficient schemes combine clear National directives with local level flexibility. - Abstract: As environmental awareness rises, integrated solid waste management (WM) schemes are increasingly being implemented all over the world. The different WM schemes usually address issues such as landfilling restrictions (mainly due to methane emissions and competing land use), packaging directives and compulsory recycling goals. These schemes are, in general, designed at a national or regional level, whereas local conditions and constraints are sometimes neglected. When national WM top-down policies, in addition to setting goals, also dictate the methods by which they are to be achieved, local authorities lose their freedom to optimize their operational WM schemes according to their specific characteristics. There are a myriad of implementation options at the local level, and by carrying out a bottom-up approach the overall national WM system will be optimal on economic and environmental scales. This paper presents a model for optimizing waste strategies at a local level and evaluates this effect at a national level. This is achieved by using a waste assessment model which enables us to compare both the economic viability of several WM options at the local (single municipal authority) level, and aggregated results for regional or national levels. A test case based on various WM approaches in Israel (several implementations of mixed and separated waste) shows that local characteristics significantly influence WM costs, and therefore the optimal scheme is one under which each local authority is able to implement its best-fitting mechanism, given that national guidelines are kept. The main result is that strict national/regional WM policies may be less efficient, unless some type of local flexibility is implemented. Our model is designed both for top-down and bottom-up assessment, and can be easily adapted for a wide range of WM option comparisons at different levels.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2023

DEEPEN 3D PFA Weights for Exploration Datasets in Magmatic Environments

DEEPEN stands for DE-risking Exploration of geothermal Plays in magmatic ENvironments. As part of the development of the DEEPEN 3D play fairway analysis (PFA) methodology for magmatic plays (conventional hydrothermal, superhot EGS, and supercritical), weights needed to be developed for use in the weighted sum of the different favorability index models produced from geoscientific exploration datasets. This GDR submission includes those weights. The weighting was done using two different approaches: one based on expert opinions, and one based on statistical learning. The weights are intended to describe how useful a particular exploration method is for imaging each component of each play type. They may be adjusted based on the characteristics of the resource under investigation, knowledge of the quality of the dataset, or simply to reduce the impact a single dataset has on the resulting outputs. Within the DEEPEN PFA, separate sets of weights are produced for each component of each play type, since exploration methods hold different levels of importance for detecting each play component, within each play type. The weights for conventional hydrothermal systems were based on the average of the normalized weights used in the DOE-funded PFA projects that were focused on magmatic plays. This decision was made because conventional hydrothermal plays are already well-studied and understood, and therefore it is logical to use existing weights where possible. In contrast, a true PFA has never been applied to superhot EGS or supercritical plays, meaning that exploration methods have never been weighted in terms of their utility in imaging the components of these plays. To produce weights for superhot EGS and supercritical plays, two different approaches were used: one based on expert opinion and the analytical hierarchy process (AHP), and another using a statistical approach based on principal component analysis (PCA). The weights are intended to provide standardized sets of weights for each play type in all magmatic geothermal systems. Two different approaches were used to investigate whether a more data-centric approach might allow new insights into the datasets, and also to analyze how different weighting approaches impact the outcomes. The expert/AHP approach involved using an online tool (https://bpmsg.com/ahp/) with built-in forms to make pairwise comparisons which are used to rank exploration methods against one-another. The inputs are then combined in a quantitative way, ultimately producing a set of consensus-based weights. To minimize the burden on each individual participant, the forms were completed in group discussions. While the group setting means that there is potential for some opinions to outweigh others, it also provides a venue for conversation to take place, in theory leading the group to a more robust consensus then what can be achieved on an individual basis. This exercise was done with two separate groups: one consisting of U.S.-based experts, and one consisting of Iceland-based experts in magmatic geothermal systems. The two sets of weights were then averaged to produce what we will from here on refer to as the "expert opinion-based weights," or "expert weights" for short. While expert opinions allow us to include more nuanced information in the weights, expert opinions are subject to human bias. Data-centric or statistical approaches help to overcome these potential human biases by focusing on and drawing conclusions from the data alone. More information on this approach along with the dataset used to produce the statistical weights may be found in the linked dataset below.

15 GEOTHERMAL ENERGY↗
DOE OSTI2018

Electron transport algorithms in the Integrated Tiger Series (ITS) codes - 25576

We describe the three electron-transport algorithms that have been implemented in the ITS Monte Carlo codes. While the underlying cross-section data is similar, each uses a fundamentally unique method, which at a high level are best characterized as condensed history, multigroup, and single scatter. Through a set of comparisons with experimental data and some comparisons of purely numerical results, we discuss various attributes of each of the algorithms and show some of the defects that can affect results. (authors)

61 RADIATION PROTECTION AND DOSIMETRY↗
DOE OSTI2021

Parallel projection—An improved return mapping algorithm for finite element modeling of shape memory alloys

Here, we present a novel finite element analysis of inelastic structures containing Shape Memory Alloys (SMAs). Phenomenological constitutive models for SMAs lead to material nonlinearities, that require substantial computational effort to resolve. Finite element analysis methods, which rely on Gauss quadrature integration schemes, must solve two sets of coupled differential equations: one at the global level and the other at the local, i.e. Gauss point level. In contrast to the conventional return mapping algorithm, which solves these two sets of coupled differential equations separately using a nested Newton procedure, we propose a scheme to solve the local and global differential equations simultaneously. In the process we also derive closed-form expressions used to update the internal/constitutive state variables, and unify the popular closest-point and cutting plane methods with our formulas. Numerical testing indicates that our method allows for larger thermomechanical loading steps and provides increased computational efficiency, over the standard return mapping algorithm.

42 ENGINEERING↗
DOE OSTI2012

Refined energetic ordering for sulphate–water ( n = 3–6) clusters using high-level electronic structure calculations

This work reports refinements of the energetic ordering of the known low-energy structures of sulfate-water clusters SO 4 2- (H2O)n (n = 3-6) using high-level electronic structure methods. Coupled cluster singles and doubles with perturbative triples (CCSD(T)) is used in combination with an estimate of basis set effects up to the complete basis set limit using second order Møller-Plesset theory. Harmonic zero point energy (ZPE), included at the B3LYP/6-311++G** level, was found to have a significant effect on the energetic ordering. Limitations of the ZPE calculations, both due to electronic structure errors, and use of the harmonic approximation, probably constitute the largest remaining errors. Due to the often small energy differences between cluster isomers, and the significant role of ZPE, deuteration can alter the relative energies of low-lying structures, and, when it is applied in conjunction with calculated harmonic ZPE’s, even alters the global minimum for n = 4.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2014

Understanding density functional theory (DFT) and completing it in practice

We review some salient points in the derivation of density functional theory (DFT) and of the local density approximation (LDA) of it. We then articulate an understanding of DFT and LDA that seems to be ignored in the literature. We note the well-established failures of many DFT and LDA calculations to reproduce the measured energy gaps of finite systems and band gaps of semiconductors and insulators. We then illustrate significant differences between the results from self consistent calculations using single trial basis sets and those from computations following the Bagayoko, Zhao, and Williams (BZW) method, as enhanced by Ekuma and Franklin (BZW-EF). Unlike the former, the latter calculations verifiably attain the absolute minima of the occupied energies, as required by DFT. These minima are one of the reasons for the agreement between their results and corresponding, experimental ones for the band gap and a host of other properties. Further, we note predictions of DFT BZW-EF calculations that have been confirmed by experiment. Our subsequent description of the BZW-EF method ends with the application of the Rayleigh theorem in the selection, among the several calculations the method requires, of the one whose results have a full, physics content ascribed to DFT. This application of the Rayleigh theorem adds to or completes DFT, in practice, to preserve the physical content of unoccupied, low energy levels. Discussions, including implications of the method, and a short conclusion follow the description of the method. The successive augmentation of the basis set in the BZW-EF method, needed for the application of the Rayleigh theorem, is also necessary in the search for the absolute minima of the occupied energies, in practice.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2015

Use of 16S rRNA gene for identification of a broad range of clinically relevant bacterial pathogens

According to World Health Organization statistics of 2011, infectious diseases remain in the top five causes of mortality worldwide. However, despite sophisticated research tools for microbial detection, rapid and accurate molecular diagnostics for identification of infection in humans have not been extensively adopted. Time-consuming culture-based methods remain to the forefront of clinical microbial detection. The 16S rRNA gene, a molecular marker for identification of bacterial species, is ubiquitous to members of this domain and, thanks to ever-expanding databases of sequence information, a useful tool for bacterial identification. In this study, we assembled an extensive repository of clinical isolates (n = 617), representing 30 medically important pathogenic species and originally identified using traditional culture-based or non-16S molecular methods. This strain repository was used to systematically evaluate the ability of 16S rRNA for species level identification. To enable the most accurate species level classification based on the paucity of sequence data accumulated in public databases, we built a Naïve Bayes classifier representing a diverse set of high-quality sequences from medically important bacterial organisms. We show that for species identification, a model-based approach is superior to an alignment based method. Overall, between 16S gene based and clinical identities, our study shows a genus-level concordance rate of 96% and a species-level concordance rate of 87.5%. We point to multiple cases of probable clinical misidentification with traditional culture based identification across a wide range of gram-negative rods and gram-positive cocci as well as common gram-negative cocci.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2018

Optimal Wind Power Uncertainty Intervals for Electricity Market Operation

It is important to select an appropriate uncertainty level of the wind power forecast for power system scheduling and electricity market operation. Traditional methods hedge against a predefined level of wind power uncertainty, such as a specific confidence interval or uncertainty set, which leaves the questions of how to best select the appropriate uncertainty levels. To bridge this gap, this paper proposes a model to optimize the forecast uncertainty intervals of wind power for power system scheduling problems, with the aim of achieving the best trade-off between economics and reliability. Then we reformulate and linearize the models into a mixed integer linear programming (MILP) without strong assumptions on the shape of the probability distribution. In order to invest the impacts on cost, reliability, and prices in a electricity market, we apply the proposed model on a twosettlement electricity market based on a six-bus test system and on a power system representing the U.S. state of Illinois. The results show that the proposed method can not only help to balance the economics and reliability of the power system scheduling, but also help to stabilize the energy prices in electricity market operation.

electricity market↗
DOE OSTI2016

TH-AB-202-08: A Robust Real-Time Surface Reconstruction Method On Point Clouds Captured From a 3D Surface Photogrammetry System

Purpose: Surface photogrammetry (e.g. VisionRT, C-Rad) provides a noninvasive way to obtain high-frequency measurement for patient motion monitoring in radiotherapy. This work aims to develop a real-time surface reconstruction method on the acquired point clouds, whose acquisitions are subject to noise and missing measurements. In contrast to existing surface reconstruction methods that are usually computationally expensive, the proposed method reconstructs continuous surfaces with comparable accuracy in real-time. Methods: The key idea in our method is to solve and propagate a sparse linear relationship from the point cloud (measurement) manifold to the surface (reconstruction) manifold, taking advantage of the similarity in local geometric topology in both manifolds. With consistent point cloud acquisition, we propose a sparse regression (SR) model to directly approximate the target point cloud as a sparse linear combination from the training set, building the point correspondences by the iterative closest point (ICP) method. To accommodate changing noise levels and/or presence of inconsistent occlusions, we further propose a modified sparse regression (MSR) model to account for the large and sparse error built by ICP, with a Laplacian prior. We evaluated our method on both clinical acquired point clouds under consistent conditions and simulated point clouds with inconsistent occlusions. The reconstruction accuracy was evaluated w.r.t. root-mean-squared-error, by comparing the reconstructed surfaces against those from the variational reconstruction method. Results: On clinical point clouds, both the SR and MSR models achieved sub-millimeter accuracy, with mean reconstruction time reduced from 82.23 seconds to 0.52 seconds and 0.94 seconds, respectively. On simulated point cloud with inconsistent occlusions, the MSR model has demonstrated its advantage in achieving consistent performance despite the introduced occlusions. Conclusion: We have developed a real-time and robust surface reconstruction method on point clouds acquired by photogrammetry systems. It serves an important enabling step for real-time motion tracking in radiotherapy. This work is supported in part by NIH grant R01 CA169102-02.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2015

Multiscale simulations of hexa-peri-hexabenzocoronene and hexa-n-dodecyl-hexa-peri-hexabenzocoronene

This study concerns atomistic and coarse-grained molecular dynamics simulations of two disk-shaped molecules in the crystalline phase. The coarse-grained models were developed by applying the Iterative Boltzmann Inversion method which is a systematic coarse-graining method. In particular, a set of radial distribution functions and intramolecular distributions are reproduced at the coarse-grained level. Before applying coarse-graining, a reliable atomistic model was developed to reproduce the main experimental properties of these molecules. The crystalline phases are analyzed in terms of the Saupe ordering tensor.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2019

A Sensitivity-informed, Process Model Abstraction Implementation in GoldSim - 19276

System-level Performance Assessment (PA) models rely on specific process-level models for some inputs, such as infiltration. For probabilistic PA, the value of the process model output depends on the values of input parameters that also vary in the PA model. The simplest conceptual solution is to draw values of the input parameters from their distributions, run the process level model at these values, and then use the output where it is needed in the PA model. However, this solution is unsatisfactory for multiple reasons: (1) the PA Model should be set up such that new runs can be made and distributions can change without having to go back and run the process-level model; (2) calling the process model from the system model is possible, but technical difficulties remain in coupling the two; and (3) there is no uncertainty in the process-level model results incorporated into the PA model. Therefore, it is desirable to develop a method that maps the values of PA Model inputs to process level model outputs, in real time within the PA Model set up and using as simple of a map as possible without losing key features of the relationship. This has been termed 'model abstraction' because information about process model runs is 'abstracted' to be used with the PA model. A simple 'nearest neighbor' abstraction approach is presented to overcome these problems, in which a sensitivity-informed distance metric is used to map a system-level model realization to the most appropriate process-level model realization. (authors)

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2014

A new ab initio potential energy surface and infrared spectra for the Ar–CS{sub 2} complex

We report a new three-dimensional potential energy surface for Ar–CS{sub 2} involving the Q{sub 3} normal mode for the υ{sub 3} antisymmetric stretching vibration of the CS{sub 2} molecule. The potential energies were calculated using the supermolecular method at the coupled-cluster singles and doubles level with noniterative inclusion of connected triples, using augmented correlation-consistent quadruple-zeta basis set plus midpoint bond functions. Two vibrationally averaged potentials with CS{sub 2} at both the ground (υ = 0) and the first excited (υ = 1)υ{sub 3} vibrational states were generated from the integration of the three-dimensional potential over the Q{sub 3} coordinate. Each potential was found to have a T-shaped global minimum and two equivalent linear local minima. The radial discrete variable representation /angular finite basis representation method and the Lanczos algorithm were applied to calculate the rovibrational energy levels. The calculated band origin shift of the complex (0.0622 cm{sup −1}) is very close to the observed one (0.0671 cm{sup −1}). The predicted infrared spectra and spectroscopic parameters based on the two averaged potentials are in excellent agreement with the available experimental data.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2015

Toward accurate tooth segmentation from computed tomography images using a hybrid level set model

Purpose: A three-dimensional (3D) model of the teeth provides important information for orthodontic diagnosis and treatment planning. Tooth segmentation is an essential step in generating the 3D digital model from computed tomography (CT) images. The aim of this study is to develop an accurate and efficient tooth segmentation method from CT images. Methods: The 3D dental CT volumetric images are segmented slice by slice in a two-dimensional (2D) transverse plane. The 2D segmentation is composed of a manual initialization step and an automatic slice by slice segmentation step. In the manual initialization step, the user manually picks a starting slice and selects a seed point for each tooth in this slice. In the automatic slice segmentation step, a developed hybrid level set model is applied to segment tooth contours from each slice. Tooth contour propagation strategy is employed to initialize the level set function automatically. Cone beam CT (CBCT) images of two subjects were used to tune the parameters. Images of 16 additional subjects were used to validate the performance of the method. Volume overlap metrics and surface distance metrics were adopted to assess the segmentation accuracy quantitatively. The volume overlap metrics were volume difference (VD, mm{sup 3}) and Dice similarity coefficient (DSC, %). The surface distance metrics were average symmetric surface distance (ASSD, mm), RMS (root mean square) symmetric surface distance (RMSSSD, mm), and maximum symmetric surface distance (MSSD, mm). Computation time was recorded to assess the efficiency. The performance of the proposed method has been compared with two state-of-the-art methods. Results: For the tested CBCT images, the VD, DSC, ASSD, RMSSSD, and MSSD for the incisor were 38.16 ± 12.94 mm{sup 3}, 88.82 ± 2.14%, 0.29 ± 0.03 mm, 0.32 ± 0.08 mm, and 1.25 ± 0.58 mm, respectively; the VD, DSC, ASSD, RMSSSD, and MSSD for the canine were 49.12 ± 9.33 mm{sup 3}, 91.57 ± 0.82%, 0.27 ± 0.02 mm, 0.28 ± 0.03 mm, and 1.06 ± 0.40 mm, respectively; the VD, DSC, ASSD, RMSSSD, and MSSD for the premolar were 37.95 ± 10.13 mm{sup 3}, 92.45 ± 2.29%, 0.29 ± 0.06 mm, 0.33 ± 0.10 mm, and 1.28 ± 0.72 mm, respectively; the VD, DSC, ASSD, RMSSSD, and MSSD for the molar were 52.38 ± 17.27 mm{sup 3}, 94.12 ± 1.38%, 0.30 ± 0.08 mm, 0.35 ± 0.17 mm, and 1.52 ± 0.75 mm, respectively. The computation time of the proposed method for segmenting CBCT images of one subject was 7.25 ± 0.73 min. Compared with two other methods, the proposed method achieves significant improvement in terms of accuracy. Conclusions: The presented tooth segmentation method can be used to segment tooth contours from CT images accurately and efficiently.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2015

Vibrational corrections to the second hyperpolarizabilities of Al{sub n}P{sub n} clusters

In this work, we report results of vibrational corrections to the second hyperpolarizabilities of Al{sub 2}P{sub 2}, Al{sub 3}P{sub 3}, Al{sub 4}P{sub 4}, Al{sub 6}P{sub 6}, and Al{sub 9}P{sub 9} clusters. The vibrational corrections were calculated through the perturbation theoretic method of Bishop and Kirtman and also using a variational methodology at the second order Møller-Plesset perturbation theory level with the aug-cc-pVDZ basis set. Results show that the vibrational corrections are important, accounting for more than half of the corresponding electronic second hyperpolarizabilities at the static limit. Comparisons between results obtained through both methods show very good agreements for the terms [α{sup 2}] and [μβ] but significant differences for the term [μ{sup 2}α]. Dynamic vibrational corrections to the second hyperpolarizabilities related to the dc-second harmonic generation, intensity dependent refractive index, and dc-Kerr nonlinear optical processes are also reported.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2016

High fidelity simulation and analysis of liquid jet atomization in a gaseous crossflow at intermediate Weber numbers

Recent advances in numerical methods coupled with the substantial enhancements in computing power and the advent of high performance computing have presented first principle, high fidelity simulation as a viable tool in the prediction and analysis of spray atomization processes. The credibility and potential impact of such simulations, however, has been hampered by the relative absence of detailed validation against experimental evidence. The numerical stability and accuracy challenges arising from the need to simulate the high liquid-gas density ratio across the sharp interfaces encountered in these flows are key reasons for this. In this work we challenge this status quo by presenting a numerical model able to deal with these challenges, employing it in simulations of liquid jet in crossflow atomization and performing extensive validation of its results against a carefully executed experiment with detailed measurements in the atomization region. We then proceed to the detailed analysis of the flow physics. The computational model employs the coupled level set and volume of fluid approach to directly capture the spatiotemporal evolution of the liquid-gas interface and the sharp-interface ghost fluid method to stably handle high liquid-air density ratio. Adaptive mesh refinement and Lagrangian droplet models are shown to be viable options for computational cost reduction. Moreover, high performance computing is leveraged to manage the computational cost. The experiment selected for validation eliminates the impact of inlet liquid and gas turbulence and focuses on the impact of the crossflow aerodynamic forces on the atomization physics. Validation is demonstrated by comparing column surface wavelengths, deformation, breakup locations, column trajectories and droplet sizes, velocities, and mass rates for a range of intermediate Weber numbers. Analysis of the physics is performed in terms of the instability and breakup characteristics and the features of downstream flow recirculation, and vortex shedding. Formation of “Λ” shape windward column waves is observed and explained by the combined upward and lateral surface motion. The existence of Rayleigh-Taylor instability as the primary mechanism for the windward column waves is verified for this case by comparing wavelengths from the simulations to those predicted by linear stability analyses. Physical arguments are employed to postulate that the type of instability manifested may be related to conditions such as the gas Weber number and the inlet turbulence level. The decreased column wavelength with increasing Weber number is found to cause enhanced surface stripping and early depletion of liquid core at higher Weber number. A peculiar “three-streak-two-membrane” liquid structure is identified at the lowest Weber number and explained as the consequence of the symmetric recirculation zones behind the jet column. It is found that the vortical flow downstream of the liquid column resembles a von Karman vortex street and that the coupling between the gas flow and droplet transport is weak for the conditions explored.

42 ENGINEERING↗
DOE OSTI2018

Iterative map-making with two-level preconditioning for polarized cosmic microwave background data sets: A worked example for ground-based experiments

Context. An estimation of the sky signal from streams of time ordered data (TOD) acquired by the cosmic microwave background (CMB) experiments is one of the most important steps in the context of CMB data analysis referred to as the map-making problem. The continuously growing CMB data sets render the CMB map-making problem progressively more challenging in terms of computational cost and memory in particular in the context of ground-based experiments with their operational limitations as well as the presence of contaminants. Aims. We study a recently proposed, novel class of the Preconditioned Conjugate Gradient (PCG) solvers which invoke two-level preconditioners in the context of the ground-based CMB experiments. We compare them against the PCG solvers commonly used in the map-making context considering their precision and time-to-solution. Methods. We compare these new methods on realistic, simulated data sets reflecting the characteristics of current and forthcoming CMB ground-based experiments. We develop a divide-and-conquer implementation of the approach where each processor performs a sequential map-making for a subset of the TOD. Results. We find that considering the map level residuals, the new class of solvers permits us to achieve a tolerance that is better than the standard approach by up to three orders of magnitude, where the residual level often saturates before convergence is reached. This often corresponds to an important improvement in the precision of the recovered power spectra in particular on the largest angular scales. The new method also typically requires fewer iterations to reach a required precision and therefore shorter run times are required for a single map-making solution. However, the construction of an appropriate two-level preconditioner can be as costly as a single standard map-making run. Nevertheless, if the same problem needs to be solved multiple times, for example, as in Monte Carlo simulations, this cost is incurred only once, and the method should be competitive, not only as far as its precision is concerned but also its performance.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2023

Electronic structure theory on modeling short-range noncovalent interactions between amino acids

While short-range noncovalent interactions (NCIs) are proving to be of importance in many chemical and biological systems, these atypical bindings happen within the so-called van der Waals envelope and pose an enormous challenge for current computational methods. We introduce SNCIAA, a database of 723 benchmark interaction energies of short-range noncovalent interactions between neutral/charged amino acids originated from protein x-ray crystal structures at the “gold standard” coupled-cluster with singles, doubles, and perturbative triples/complete basis set [CCSD(T)/CBS] level of theory with a mean absolute binding uncertainty less than 0.1 kcal/mol. Subsequently, a systematic assessment of commonly used computational methods, such as the second-order Møller−Plesset theory (MP2), density functional theory (DFT), symmetry-adapted perturbation theory (SAPT), composite electronic-structure methods, semiempirical approaches, and the physical-based potentials with machine learning (IPML) on SNCIAA is carried out. It is shown that the inclusion of dispersion corrections is essential even though these dimers are dominated by electrostatics, such as hydrogen bondings and salt bridges. Overall, MP2, ωB97M-V, and B3LYP+D4 turned out to be the most reliable methods for the description of short-range NCIs even in strongly attractive/repulsive complexes. SAPT is also recommended in describing short-range NCIs only if the δMP2 correction has been included. The good performance of IPML for dimers at close-equilibrium and long-range conditions is not transferable to the short-range. We expect that SNCIAA will assist the development/improvement/validation of computational methods, such as DFT, force-fields, and ML models, in describing NCIs across entire potential energy surfaces (short-, intermediate-, and long-range NCIs) on the same footing.

Chemistry↗
DOE OSTI2020

Multi‐hypothesis comparison of Farquhar and Collatz photosynthesis models reveals the unexpected influence of empirical assumptions at leaf and global scales

Abstract Mechanistic photosynthesis models are at the heart of terrestrial biosphere models (TBMs) simulating the daily, monthly, annual and decadal rhythms of carbon assimilation ( A ). These models are founded on robust mathematical hypotheses that describe how A responds to changes in light and atmospheric CO 2 concentration. Two predominant photosynthesis models are in common usage: Farquhar (FvCB) and Collatz (CBGB). However, a detailed quantitative comparison of these two models has never been undertaken. In this study, we unify the FvCB and CBGB models to a common parameter set and use novel multi‐hypothesis methods (that account for both hypothesis and parameter variability) for process‐level sensitivity analysis. These models represent three key biological processes: carboxylation, electron transport, triose phosphate use (TPU) and an additional model process: limiting‐rate selection. Each of the four processes comprises 1–3 alternative hypotheses giving 12 possible individual models with a total of 14 parameters. To broaden inference, TBM simulations were run and novel, high‐resolution photosynthesis measurements were made. We show that parameters associated with carboxylation are the most influential parameters but also reveal the surprising and marked dominance of the limiting‐rate selection process (accounting for 57% of the variation in A vs. 22% for carboxylation). The limiting‐rate selection assumption proposed by CBGB smooths the transition between limiting rates and always reduces A below the minimum of all potentially limiting rates, by up to 25%, effectively imposing a fourth limitation on A . Evaluation of the CBGB smoothing function in three TBMs demonstrated a reduction in global A by 4%–10%, equivalent to 50%–160% of current annual fossil fuel emissions. This analysis reveals a surprising and previously unquantified influence of a process that has been integral to many TBMs for decades, highlighting the value of multi‐hypothesis methods.

54 ENVIRONMENTAL SCIENCES↗